bootstrapParallel: Bootstrap biotic stations and acoustic data
In Sea2Data/Rstox: Running Stox functionality independently in R

Description Usage Arguments Value

Resample (bootstrap) trawl stations based on survey (Cruise) number and station numbers (SerialNo) to estimate uncertainty in estimates.

bootstrapParallel(projectName, assignments, psuNASC = NULL,
  stratumNASC = NULL, resampledNASC = NULL, nboot = 5,
  startProcess = "TotalLengthDist", endProcess = "SuperIndAbundance",
  seed = 1, cores = 1, msg = TRUE, parameters = list(),
  sorted = TRUE, JavaMem = getRstoxDef("JavaMem"), ...)

`projectName`	The name or full path of the project, a baseline object (as returned from `getBaseline` or `runBaseline`, og a project object (as returned from `openProject`).
`assignments`	Trawl assignment from baseline.
`psuNASC`	MeanNASC from baseline.
`stratumNASC`	Strata NASC estimates from getNASCDistr(baseline).
`resampledNASC`	Resampled NASC distribution.
`nboot`	Number of bootstrap replicates.
`startProcess`	The start process of the bootstrapping, being the first process before which biostations has been assigned and NASC values have been calculated.
`endProcess`	The end process of the bootstrapping, being the process returning a matrix containing the following columns: "Stratum", "Abundance", "weight", and grouping variables such as "age", "SpecCat", "sex".
`seed`	The seed for the random number generator (used for reproducibility).
`cores`	An integer giving the number of cores to run the bootstrapping over.
`msg`	Logical: if TRUE print messages from runBaseline().
`parameters`	Parameters set by user in Stox (only kept for compatibility with older versions);. parameters$nboot Number of bootstrap replicates parameters$seed The seed for the random number generator (used for reproducibility)
`sorted`	Should the data be sorted prior to sampling?
`JavaMem`	The memory occupied by the Java virtual machine. Default is returned by getRstoxDef("JavaMem"). Reducing this may be usefull when using mutiple cores.
`baseline`	Optional: a StoX baseline object returned from runBaseline().

list with (1) the abundance by length in the orginal model, (2) the abundance by length in the bootstrap run, (3) the abundance by super individuals in the orginal model, (4) the abundance by super individuals in the bootstrap run

Sea2Data/Rstox documentation built on May 14, 2019, 8:58 a.m.